Hub : Traits :

Rheumatoid Arthritis

90 significantly associated models · 32 unique genes.

Significant Loci

#	chr	p0	p1	# assoc genes	# joint genes	best TWAS P	best SNP P	cond SNP P	% var exp	joint genes
1	1	1829482	3261925	1	1	2.7e-09	4.6e-08	6.3e-02	88	MMEL1
2	1	37628741	39108725	2	1	1.9e-08	7.6e-08	9.0e-07	16	INPP5B
3	1	113236087	115222434	11	5	8.6e-49	1.7e-102	NaN	NaN	DCLRE1B PHTF1 PTPN22
4	2	60422555	61938725	2	1	9.7e-08	5.4e-08	1.1e-01	91	PUS10
5	2	99468341	101456989	1	1	3.9e-08	7.4e-09	2.1e-02	84	AFF3
6	3	11900101	13321852	1	1	1.3e-07	1.2e-06	4.6e-01	98	MKRN2
7	5	54699883	56226605	1	1	1.1e-12	2.7e-14	5.1e-03	86	ANKRD55
8	5	101392473	103061825	1	1	2.3e-09	1.0e-09	2.6e-02	87	PAM
9	6	44002373	44513341	1	1	3.2e-08	1.0e-07	3.5e-02	84	TCTE1
10	7	127878155	129284182	1	1	4.7e-12	8.5e-10	8.4e-04	70	IRF5
11	10	63414038	64105321	1	1	2.5e-08	4.9e-10	1.6e-04	63	ARID5B
12	11	36262540	36777339	1	1	4.7e-08	2.2e-08	1.9e-01	94	TRAF6
13	12	111522000	112941571	1	1	2.4e-07	6.8e-07	5.7e-04	52	ALDH2
14	18	12538482	13133577	1	1	3.0e-07	1.1e-06	1.0e-01	89	PTPN2
15	22	39499604	40026309	1	1	4.3e-09	4.5e-08	7.7e-01	100	SYNGR1

Pleiotropic Associations

Trait	chisq ratio	# genes⁺	# genes⁺⁺	% genes⁺⁺	corr	corr P	genes
Hypothyroidism (self reported)	28.04	11	8	17.8	0.97	1.6e-08	ALDH2 ARID5B DCLRE1B INPP5B IRF5 MMEL1 PAM PHTF1 PTPN2 PTPN22 SYNGR1
Hypothyroidism/myxoedema (self-reported)	22.88	11	6	13.3	0.98	1.2e-08	ALDH2 ARID5B DCLRE1B INPP5B IRF5 MMEL1 PAM PHTF1 PTPN2 PTPN22 SYNGR1
Medication: Levothyroxine sodium	18.29	9	6	13.3	0.99	9.6e-09	ALDH2 ARID5B DCLRE1B INPP5B MMEL1 PAM PHTF1 PTPN2 PTPN22
Lupus	9.28	4	1	2.2	0.86	6.0e-02	ANKRD55 ARID5B DCLRE1B IRF5
Primary Biliary Cirrhosis	6.13	4	2	4.4	0.64	3.6e-01	IRF5 MMEL1 PAM SYNGR1
Crohns Disease (2017)	5.15	4	2	4.4	-0.26	6.7e-01	ANKRD55 DCLRE1B PTPN2 TCTE1
Taking other prescription medications	4.33	1	1	2.2	0.00	1.0e+00	DCLRE1B
Blood Eosinophil Count	4.00	6	5	11.1	0.41	4.2e-01	ALDH2 INPP5B IRF5 MKRN2 PTPN2 PUS10
Crohns Disease (2012)	3.86	2	1	2.2	0.00	1.0e+00	DCLRE1B PTPN2
Irritable Bowel Disease (IBD)	3.45	3	1	2.2	0.00	1.0e+00	ANKRD55 PTPN2 TCTE1
Mouth/teeth dental problems: Mouth ulcers	3.36	3	1	2.2	0.00	1.0e+00	AFF3 IRF5 PAM
Other serious medical condition/disability diagnosed by doctor	3.31	2	0	0.0	0.00	1.0e+00	DCLRE1B PTPN2
Blood White Count	3.23	6	4	8.9	0.13	7.6e-01	ALDH2 DCLRE1B MKRN2 PAM PHTF1 SYNGR1
Long-standing illness, disability or infirmity	3.13	1	0	0.0	0.00	1.0e+00	DCLRE1B
Ulcerative Colitis	3.01	1	1	2.2	0.00	1.0e+00	IRF5
Allergy or Eczema	3.01	4	1	2.2	0.58	4.2e-01	ANKRD55 PTPN22 PUS10 TRAF6
Ulcerative Colitis (UC)	2.72	2	0	0.0	0.00	1.0e+00	IRF5 PTPN2
Coronary Artery Disease (CAD)	2.50	1	0	0.0	0.00	1.0e+00	ALDH2
Breast Cancer	2.48	2	1	2.2	-0.52	4.8e-01	DCLRE1B PHTF1
Hayfever, allergic rhinitis or eczema	2.42	2	0	0.0	0.00	1.0e+00	PUS10 TRAF6
Age when periods started (menarche)	1.99	2	0	0.0	0.00	1.0e+00	DCLRE1B PUS10
Allergy	1.89	1	0	0.0	0.00	1.0e+00	TRAF6
Number of treatments/medications taken	1.85	1	0	0.0	0.00	1.0e+00	DCLRE1B
Worry (Nagel 2018)	1.76	2	0	0.0	0.00	1.0e+00	ARID5B PAM
Diastolic blood pressure, automated reading	1.75	1	1	2.2	0.00	1.0e+00	ALDH2
Systolic Blood Pressure	1.73	2	2	4.4	0.00	1.0e+00	ALDH2 ARID5B
Alcohol intake frequency.	1.73	1	0	0.0	0.00	1.0e+00	PUS10
Worry too long after embarrassment	1.71	1	0	0.0	0.00	1.0e+00	DCLRE1B
Reaction Time	1.66	1	0	0.0	0.00	1.0e+00	ALDH2
Number of self-reported non-cancer illnesses	1.61	1	0	0.0	0.00	1.0e+00	ALDH2
Smoking status: Current	1.57	1	0	0.0	0.00	1.0e+00	PHTF1
Alcohol usually taken with meals	1.55	1	0	0.0	0.00	1.0e+00	AFF3
Current tobacco smoking	1.52	1	0	0.0	0.00	1.0e+00	PHTF1
Asthma	1.52	1	0	0.0	0.00	1.0e+00	INPP5B
Medication: Allopurinol	1.49	1	0	0.0	0.00	1.0e+00	IRF5
Asthma (self-reported)	1.48	1	0	0.0	0.00	1.0e+00	INPP5B
Fluid intelligence score	1.44	1	0	0.0	0.00	1.0e+00	PAM
Overall health rating	1.41	1	0	0.0	0.00	1.0e+00	DCLRE1B
Illnesses of father: High blood pressure	1.41	1	0	0.0	0.00	1.0e+00	ALDH2
Ever smoked	1.39	1	0	0.0	0.00	1.0e+00	PHTF1
Systolic blood pressure, automated reading	1.37	2	1	2.2	0.00	1.0e+00	ALDH2 ARID5B
Gout (self-reported)	1.37	1	0	0.0	0.00	1.0e+00	IRF5
Qualifications: College or University degree	1.37	2	0	0.0	0.00	1.0e+00	AFF3 PAM
Verbal and Numeric Reasoning (VNR)	1.36	1	0	0.0	0.00	1.0e+00	PAM
Ever depressed for a whole week	1.35	1	0	0.0	0.00	1.0e+00	ALDH2
Age at First Birth	1.34	1	0	0.0	0.00	1.0e+00	AFF3
Medication: Blood pressure	1.34	1	1	2.2	0.00	1.0e+00	ALDH2
Medication for cholesterol	1.33	1	0	0.0	0.00	1.0e+00	ALDH2
Frequency of tiredness / lethargy in last 2 weeks	1.31	1	0	0.0	0.00	1.0e+00	PTPN2
Mean time to correctly identify matches	1.30	1	0	0.0	0.00	1.0e+00	ALDH2
Past tobacco smoking	1.29	1	0	0.0	0.00	1.0e+00	PHTF1
Blood Red Count	1.28	5	5	11.1	0.60	2.8e-01	AFF3 ALDH2 ANKRD55 PAM PTPN2
Worrier / anxious feelings	1.28	1	0	0.0	0.00	1.0e+00	PAM
LDL Cholesterol	1.26	1	0	0.0	0.00	1.0e+00	ALDH2
Heel bone mineral density (BMD) T-score, automated (right)	1.26	1	0	0.0	0.00	1.0e+00	ARID5B
Lung FVC	1.23	3	0	0.0	0.00	1.0e+00	AFF3 ARID5B PAM
High blood pressure	1.23	1	1	2.2	0.00	1.0e+00	ALDH2
Smoking Status	1.16	1	0	0.0	0.00	1.0e+00	PHTF1
Father's age at death	1.16	1	0	0.0	0.00	1.0e+00	ALDH2
Suffer from 'nerves'	1.14	1	0	0.0	0.00	1.0e+00	PAM
Heel T-Score	1.11	6	1	2.2	0.39	4.4e-01	AFF3 ANKRD55 ARID5B INPP5B IRF5 PHTF1
Waist Hip Ratio (WHR)	1.10	1	1	2.2	0.00	1.0e+00	PAM
Intelligence (Savage-Jansen 2018)	1.07	1	0	0.0	0.00	1.0e+00	PAM
Vascular/heart problems diagnosed by doctor	1.05	1	1	2.2	0.00	1.0e+00	ALDH2
Type 2 Diabetes (T2D) (2018)	1.04	1	0	0.0	0.00	1.0e+00	PAM
Medication for pain relief, constipation, heartburn	1.04	1	0	0.0	0.00	1.0e+00	PAM
Hypertension (Self-reported)	1.03	1	1	2.2	0.00	1.0e+00	ALDH2
Impedance of leg (left)	1.02	3	0	0.0	0.00	1.0e+00	ARID5B MMEL1 PAM
Sensitivity / hurt feelings	1.00	1	0	0.0	0.00	1.0e+00	MMEL1
Impedance of leg (right)	1.00	1	0	0.0	0.00	1.0e+00	PAM
Mouth/teeth dental problems	1.00	1	0	0.0	0.00	1.0e+00	IRF5
Blood Platelet Count	0.96	5	3	6.7	0.40	5.1e-01	ALDH2 ARID5B IRF5 PAM SYNGR1
Mouth/teeth dental problems: Dentures	0.93	1	0	0.0	0.00	1.0e+00	ARID5B
Lung FEV1/FVC ratio	0.91	1	0	0.0	0.00	1.0e+00	ARID5B
Cardiovascular Disease	0.88	1	1	2.2	0.00	1.0e+00	ALDH2
Leg predicted mass (left)	0.85	2	0	0.0	0.00	1.0e+00	ARID5B MKRN2
Forced expiratory volume in 1-second (FEV1)	0.85	1	0	0.0	0.00	1.0e+00	AFF3
Leg predicted mass (right)	0.85	1	0	0.0	0.00	1.0e+00	ARID5B
Leg fat-free mass (left)	0.84	2	0	0.0	0.00	1.0e+00	ARID5B MKRN2
Leg fat-free mass (right)	0.84	1	0	0.0	0.00	1.0e+00	ARID5B
Weight	0.83	1	0	0.0	0.00	1.0e+00	MKRN2
Hip circumference	0.83	1	0	0.0	0.00	1.0e+00	MKRN2
Basal metabolic rate	0.81	3	0	0.0	0.00	1.0e+00	ALDH2 ARID5B MKRN2
Whole body water mass	0.80	2	0	0.0	0.00	1.0e+00	ALDH2 ARID5B
Whole body fat-free mass	0.79	2	0	0.0	0.00	1.0e+00	ALDH2 ARID5B
Fed-up feelings	0.78	1	0	0.0	0.00	1.0e+00	ALDH2
Trunk fat-free mass	0.78	2	0	0.0	0.00	1.0e+00	ALDH2 ARID5B
Trunk predicted mass	0.78	2	0	0.0	0.00	1.0e+00	ALDH2 ARID5B
Arm fat-free mass (left)	0.74	2	0	0.0	0.00	1.0e+00	ALDH2 ARID5B
Arm predicted mass (left)	0.74	1	0	0.0	0.00	1.0e+00	ALDH2
Comparative height size at age 10	0.73	1	0	0.0	0.00	1.0e+00	ALDH2
Trunk fat mass	0.72	2	0	0.0	0.00	1.0e+00	MKRN2 SYNGR1
Leg fat mass (right)	0.71	1	0	0.0	0.00	1.0e+00	MKRN2
Whole body fat mass	0.69	1	0	0.0	0.00	1.0e+00	MKRN2
Arm fat-free mass (right)	0.67	2	0	0.0	0.00	1.0e+00	ALDH2 ARID5B
Leg fat mass (left)	0.67	1	0	0.0	0.00	1.0e+00	MKRN2
Height	0.64	7	5	11.1	-0.39	3.9e-01	ALDH2 ARID5B INPP5B IRF5 MKRN2 PAM PUS10
Body fat percentage	0.63	1	0	0.0	0.00	1.0e+00	MKRN2
Arm predicted mass (right)	0.63	1	0	0.0	0.00	1.0e+00	ALDH2
Trunk fat percentage	0.62	2	0	0.0	0.00	1.0e+00	MKRN2 SYNGR1
Standing height	0.62	5	0	0.0	-0.69	2.0e-01	ALDH2 ARID5B INPP5B IRF5 MKRN2
Arm fat mass (right)	0.61	1	0	0.0	0.00	1.0e+00	MKRN2
Arm fat percentage (right)	0.60	1	0	0.0	0.00	1.0e+00	MKRN2
Waist circumference	0.59	1	0	0.0	0.00	1.0e+00	MKRN2
BMI	0.58	1	0	0.0	0.00	1.0e+00	MKRN2
Sitting height	0.57	1	0	0.0	0.00	1.0e+00	PUS10
Arm fat mass (left)	0.57	1	0	0.0	0.00	1.0e+00	MKRN2
Arm fat percentage (left)	0.56	1	0	0.0	0.00	1.0e+00	MKRN2
Impedance of arm (left)	0.49	1	0	0.0	0.00	1.0e+00	ALDH2
Tanning	0.41	2	1	2.2	0.00	1.0e+00	PTPN2 SYNGR1
Hair Pigment	0.14	1	1	2.2	0.00	1.0e+00	SYNGR1

Associations by panel

study	tissue	# hits	% hits/tests	avg chisq
The Cancer Genome Atlas	Glioblastoma Multiforme	1	0.104	1.7
GTEx	Artery Tibial	3	0.082	1.5
GTEx	Brain Caudate basal ganglia	0	0.000	1.5
GTEx	Brain Cerebellar Hemisphere	2	0.138	1.5
GTEx	Breast Mammary Tissue	1	0.052	1.5
GTEx	Colon Sigmoid	1	0.070	1.5
GTEx	Colon Transverse	3	0.150	1.5
GTEx	Esophagus Muscularis	1	0.032	1.5
GTEx	Lung	1	0.036	1.5
GTEx	Ovary	0	0.000	1.5
GTEx	Pituitary	0	0.000	1.5
GTEx	Prostate	0	0.000	1.5
GTEx	Skin Sun Exposed Lower leg	1	0.028	1.5
GTEx	Spleen	2	0.145	1.5
GTEx	Stomach	0	0.000	1.5
GTEx	Uterus	0	0.000	1.5
GTEx	Vagina	0	0.000	1.5
GTEx	Whole Blood	1	0.052	1.5
NTR	Blood	1	0.042	1.5
ROSMAP	Brain Pre-frontal Cortex	4	0.093	1.5
YFS	Blood	3	0.066	1.5
The Cancer Genome Atlas	Breast Invasive Carcinoma	6	0.142	1.5
The Cancer Genome Atlas	Cervical Squamous Cell Carcinoma	0	0.000	1.5
The Cancer Genome Atlas	Esophageal Carcinoma	1	0.153	1.5
The Cancer Genome Atlas	Kidney Renal Papillary Cell Carcinoma	3	0.154	1.5
The Cancer Genome Atlas	Pancreatic Adenocarcinoma	2	0.126	1.5
The Cancer Genome Atlas	Pheochromocytoma and Paraganglioma	1	0.080	1.5
The Cancer Genome Atlas	Rectum Adenocarcinoma	1	0.152	1.5
The Cancer Genome Atlas	Soft Tissue Sarcoma	1	0.099	1.5
The Cancer Genome Atlas	Testicular Germ Cell Tumors	1	0.082	1.5
GTEx	Adipose Subcutaneous	1	0.029	1.4
GTEx	Adipose Visceral Omentum	3	0.151	1.4
GTEx	Adrenal Gland	0	0.000	1.4
GTEx	Artery Aorta	1	0.035	1.4
GTEx	Artery Coronary	0	0.000	1.4
GTEx	Brain Cerebellum	0	0.000	1.4
GTEx	Brain Cortex	0	0.000	1.4
GTEx	Brain Frontal Cortex BA9	1	0.111	1.4
GTEx	Brain Hippocampus	0	0.000	1.4
GTEx	Brain Hypothalamus	0	0.000	1.4
GTEx	Brain Nucleus accumbens basal ganglia	0	0.000	1.4
GTEx	Brain Putamen basal ganglia	0	0.000	1.4
GTEx	Breast Mammary Tissue (Male)	0	0.000	1.4
GTEx	Breast Mammary Tissue (Female)	0	0.000	1.4
GTEx	Cells EBV-transformed lymphocytes	0	0.000	1.4
GTEx	Cells Transformed fibroblasts	5	0.122	1.4
GTEx	Esophagus Gastroesophageal Junction	1	0.072	1.4
GTEx	Esophagus Mucosa	1	0.031	1.4
GTEx	Heart Atrial Appendage	0	0.000	1.4
GTEx	Heart Left Ventricle	0	0.000	1.4
GTEx	Liver	0	0.000	1.4
GTEx	Muscle Skeletal	1	0.036	1.4
GTEx	Nerve Tibial	3	0.071	1.4
GTEx	Pancreas	0	0.000	1.4
GTEx	Skin Not Sun Exposed Suprapubic	0	0.000	1.4
GTEx	Small Intestine Terminal Ileum	0	0.000	1.4
GTEx	Testis	2	0.065	1.4
GTEx	Thyroid	1	0.026	1.4
METSIM	Adipose	7	0.155	1.4
CommonMind	Brain Pre-frontal Cortex	3	0.057	1.4
The Cancer Genome Atlas	Bladder Urothelial Carcinoma	0	0.000	1.4
The Cancer Genome Atlas	Colon Adenocarcinoma	2	0.101	1.4
The Cancer Genome Atlas	Head and Neck Squamous Cell Carcinoma	1	0.038	1.4
The Cancer Genome Atlas	Kidney Renal Clear Cell Carcinoma	2	0.051	1.4
The Cancer Genome Atlas	Brain Lower Grade Glioma	2	0.049	1.4
The Cancer Genome Atlas	Liver Hepatocellular Carcinoma	1	0.095	1.4
The Cancer Genome Atlas	Lung Adenocarcinoma	1	0.036	1.4
The Cancer Genome Atlas	Lung Squamous Cell Carcinoma	0	0.000	1.4
The Cancer Genome Atlas	Ovarian Serous Cystadenocarcinoma	1	0.066	1.4
The Cancer Genome Atlas	Prostate Adenocarcinoma	4	0.090	1.4
The Cancer Genome Atlas	Skin Cutaneous Melanoma	0	0.000	1.4
The Cancer Genome Atlas	Stomach Adenocarcinoma	0	0.000	1.4
The Cancer Genome Atlas	Thyroid Carcinoma	5	0.101	1.4
The Cancer Genome Atlas	Uterine Corpus Endometrial Carcinoma	0	0.000	1.4